Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa01g00174 ATGAAGATGGCTTTTTTAGGGACAACCCAAAAGTGCAAAGCTTGTGACAAGACTGTTTATTTGGTTGATCAGCTTACTGCTGATAACAAAGTTTATCATAAGGCTTGTTTCAGATGCCACCATTGCAAGAGCACTCTAAAGTTGTTCAATTACTCCTCCTTTGAGGGTGTATTGTATTGCAAACCTCACTTTGATCAGTTGTTCAAGATGACTGGAAGCTTAGAAAAAAGCTTTGAAGCTACTCCAAGAACTGTTAGAACAGACAGATCTACCAATCAGGTCCAAACCAACAGCAAATTGTCAAGTTTATTTGCTGGAACTCAAGATAAATGTGTTACTTGCAAGAAAACTGTTTATCCAATTGAGAAGGTGGCAGTTGACAGTAAATCATACCACAGAGCTTGCTTCAGGTGCTCACATGGAGGGTGTGTGATTAGCCCATCGAACTACATAGCGCACGAACATCGACTCTACTGCAGGCATCATCACAACCAACTCTTCAAACAGAAGGGGAATTTCAGCCAACTTGACAAGCATGAAGAGATTAAAGGAAGTGACTAA 561 40.46 MKMAFLGTTQKCKACDKTVYLVDQLTADNKVYHKACFRCHHCKSTLKLFNYSSFEGVLYCKPHFDQLFKMTGSLEKSFEATPRTVRTDRSTNQVQTNSKLSSLFAGTQDKCVTCKKTVYPIEKVAVDSKSYHRACFRCSHGGCVISPSNYIAHEHRLYCRHHHNQLFKQKGNFSQLDKHEEIKGSD* 187
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
1 1133793 1136944 - CsaV3_1G001740.1 Csa01g00174 514671

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa01g00174 186 CDD LIM2_SF3 111 171 - -
Csa01g00174 186 Pfam LIM domain 111 166 IPR001781 -
Csa01g00174 186 Pfam LIM domain 12 66 IPR001781 -
Csa01g00174 186 ProSitePatterns LIM zinc-binding domain signature. 12 46 IPR001781 -
Csa01g00174 186 PANTHER OS06G0237300 PROTEIN 4 183 IPR045268 GO:0051015
Csa01g00174 186 Gene3D Cysteine Rich Protein 105 175 - -
Csa01g00174 186 Gene3D Cysteine Rich Protein 7 76 - -
Csa01g00174 186 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 137 175 - -
Csa01g00174 186 ProSiteProfiles LIM domain profile. 109 169 IPR001781 -
Csa01g00174 186 SMART lim_4 11 63 IPR001781 -
Csa01g00174 186 SMART lim_4 110 162 IPR001781 -
Csa01g00174 186 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 103 136 - -
Csa01g00174 186 ProSiteProfiles LIM domain profile. 10 70 IPR001781 -
Csa01g00174 186 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 38 78 - -
Csa01g00174 186 PANTHER GATA TYPE ZINC FINGER TRANSCRIPTION FACTOR FAMILY PROTEIN 4 183 - -
Csa01g00174 186 CDD LIM1_SF3 8 69 - -
Csa01g00174 186 SUPERFAMILY Glucocorticoid receptor-like (DNA-binding domain) 4 37 - -
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa01g00174 K09377 CSRP; cysteine and glycine-rich protein - csv:101212133 397.512
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa01g00174 Csa-Chr1:1133793 Csa02g01888 Csa-Chr2:17913507 2.99E-88 dispersed
Csa01g00174 Csa-Chr1:1133793 Csa04g02483 Csa-Chr4:24766233 1.34E-93 transposed
       

Deco-Alignment

Select Vvi1 Blo1 Blo2 Bda1 Bda2 Bpe1 Bpe2 Bma1 Bma2 Cmo1 Cmo2 Cma1 Cma2 Car1 Car2 Sed1 Cpe1 Cpe2 Bhi1 Tan1 Cmetu1 Lac1 Hepe1 Mch1 Lcy1 Cla1 Cam1 Cec1 Cco1 Clacu1 Cmu1 Cre1 Cone1 Cone2 Cone3 Cone4 Lsi1 Csa1 Chy1 Cme1 Blo3 Blo4 Bda3 Bda4 Bpe3 Bpe4 Bma3 Bma4 Sed2 Cmo3 Cmo4 Cma3 Cma4 Car3 Car4 Cpe3 Cpe4 Bhi2 Tan2 Cmetu2 Lac2 Hepe2 Mch2 Lcy2 Cla2 Cam2 Cec2 Cco2 Clacu2 Cmu2 Cre2 Lsi2 Csa2 Chy2 Cme2
Vvi17g698 Blo04g00744 . . . Bpe12g00582 . . . . . Cma10g00145 . Car10g00136 Car11g00110 Sed08g0155 . Cpe04g01541 Bhi02g00404 Tan09g2210 Cmetu02g0989 . Hepe09g0177 . . Cla06g01642 Cam06g1826 Cec06g1874 Cco06g1881 Clacu06g1785 Cmu06g1726 Cre06g2545 . . . Cone19ag0128 . . . . Blo13g00045 . . Bda14g00823 . . Bma03g00797 Bma08g00180 . Cmo10g00152 . . . . . . Cpe18g00829 . . . . . . . . . . . . . . Lsi06g01528 Csa01g00174 Chy02g02557 Cme02g01945
       

Syn-Orthogroups

Select Orthogroup Bda Bhi Blo Bma Bpe Cam Car Cco Cec Chy Cla Clacu Cma Cme Cmetu Cmo Cmu Cone Cpe Cre Csa HCH Hepe Lac Lcy Lsi Mch Sed Tan Vvi Total
OG0000380 2 4 3 3 2 4 8 4 4 3 3 4 8 4 4 7 4 3 8 4 4 4 4 4 4 3 4 8 4 3 128
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
30609 PF00412 LIM 3.30E-10 CL0167 Csa TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa01g00174 Csa_Chr01 FPKM 2.721267 3.398442 2.504063 1.379797 6.993309 5.360519 7.327343 0.968591 1.03355 1.565962